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0
votes
0
replies
199
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SNV occuring 2 fold more in forward than in reverse reads should be filtered?
VariantCalling
10 months ago by jeni ▴ 60
0
votes
0
replies
3.9k
views
Comment: Comment: MAGERI: a software tool for calling rare variants and detecting circulating tumo
18 months ago by jeni ▴ 60
10
votes
5
replies
4.0k
views
Remove supplementary alignments from a bam file
alignment
updated 20 months ago by • 0 • written 2.6 years ago by ▴ 60
0
votes
1
reply
458
views
How to statistically determine if a mutation has an impact on expression individually for one patient
RNA-Seq variant calling
22 months ago by jeni ▴ 60
0
votes
1
reply
451
views
Comment: C: Correct number of detected variants by coverage
2.0 years ago by jeni ▴ 60
0
votes
3
replies
451
views
Correct number of detected variants by coverage
variant calling
2.0 years ago by jeni ▴ 60
0
votes
0
replies
683
views
Comment: C: Differencial expression analysis between groups determined by two variables
2.2 years ago by jeni ▴ 60
0
votes
3
replies
683
views
Differencial expression analysis between groups determined by two variables
expression microarray clustering
2.2 years ago by jeni ▴ 60
0
votes
1
reply
974
views
Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
2.2 years ago by jeni ▴ 60
0
votes
1
reply
974
views
Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
2.2 years ago by jeni ▴ 60
3
votes
6
replies
974
views
Does it make sense to transform expression data to zscore after performing RMA?
microarray expression
updated 6 months ago by • 0 • written 2.2 years ago by ▴ 60
0
votes
0
replies
519
views
Is it right to use a low amount of bumphunter permutations?
methylation microarray DMR
2.2 years ago by jeni ▴ 60
0
votes
1
reply
1.9k
views
Comment: C: HOMER hg19 not found in config.txt
2.2 years ago by jeni ▴ 60
0
votes
0
replies
414
views
How to deal with SNPs and INDELs called in hypermutated regions?
variant calling
2.3 years ago by jeni ▴ 60
0
votes
0
replies
442
views
Where to find a list of hypermutated regions for hg19 assembly?
variant calling
2.4 years ago by jeni ▴ 60
2
votes
1
reply
681
views
How to know which genes are favouring or inactivating a pathway in a gene set enrichment analysis
enrichment analysis
updated 2.4 years ago by ★ 2.2k • written 2.4 years ago by ▴ 60
0
votes
0
replies
759
views
Reduce GRanges by different lengths of overlapping, deppending on each compared intervals
GRanges
2.5 years ago by jeni ▴ 60
0
votes
3
replies
1.9k
views
HOMER hg19 not found in config.txt
HOMER motif finding
updated 15 months ago by • 0 • written 2.5 years ago by ▴ 60
0
votes
0
replies
870
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.5 years ago by jeni ▴ 60
0
votes
1
reply
870
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.5 years ago by jeni ▴ 60
0
votes
1
reply
870
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.5 years ago by jeni ▴ 60
3
votes
9
replies
870
views
Best practice to find regulatory motifs in a set of sequences
regulatory motif finding
updated 2.5 years ago by ★ 21k • written 2.5 years ago by ▴ 60
0
votes
1
reply
870
views
Comment: C: Best practice to find regulatory motifs in a set of sequences
2.5 years ago by jeni ▴ 60
0
votes
1
reply
852
views
Comment: C: Best way to call differencially methylated positions taking into account results
2.5 years ago by jeni ▴ 60
3
votes
3
replies
852
views
Best way to call differencially methylated positions taking into account results from both Beta and M values
methylation
updated 2.5 years ago by ★ 2.2k • written 2.5 years ago by ▴ 60
0
votes
1
reply
9.3k
views
Comment: C: Beta-values, M-values and thresholds on effect size
2.5 years ago by jeni ▴ 60
2
votes
5
replies
862
views
VEP is returning MOTIF_NAME values not recognised by Ensembl
snp Ensembl VEP
updated 2.5 years ago by ▴ 270 • written 2.5 years ago by ▴ 60
0
votes
0
replies
475
views
Download all positions where a motif exist from the genome browser
genome
2.5 years ago by jeni ▴ 60
0
votes
1
reply
862
views
Comment: C: VEP is returning MOTIF_NAME values not recognised by Ensembl
2.5 years ago by jeni ▴ 60
0
votes
0
replies
468
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.6 years ago by jeni ▴ 60
0
votes
1
reply
468
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.6 years ago by jeni ▴ 60
0
votes
1
reply
468
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
2.6 years ago by jeni ▴ 60
0
votes
6
replies
468
views
Pathways analysis taking into account the number of times a gene is present among several patients
snp
2.6 years ago by jeni ▴ 60
0
votes
0
replies
662
views
Comment: C: filter_vep not properly filtering
2.6 years ago by jeni ▴ 60
2
votes
2
replies
907
views
Read genotype information with VariantAnnotation
SNP R vcf Bioconductor VariantAnnotation
updated 2.6 years ago by 3.3k • written 2.6 years ago by ▴ 60
0
votes
2
replies
662
views
filter_vep not properly filtering
snp
updated 2.6 years ago by 37k • written 2.6 years ago by ▴ 60
0
votes
0
replies
2.1k
views
Comment: C: Parse VEP VCF with variantAnnotation
2.6 years ago by jeni ▴ 60
5
votes
6
replies
2.1k
views
Parse VEP VCF with variantAnnotation
snp R
2.6 years ago by jeni ▴ 60
0
votes
0
replies
2.1k
views
Comment: C: Parse VEP VCF with variantAnnotation
2.6 years ago by jeni ▴ 60
0
votes
1
reply
1.1k
views
Comment: C: Is it right to combine multiple runs downloaded from SRA?
2.6 years ago by jeni ▴ 60
1
vote
4
replies
1.1k
views
Is it right to combine multiple runs downloaded from SRA?
next-gen
2.6 years ago by jeni ▴ 60
0
votes
4
replies
445
views
How to remove reads supporting the same fragment that other reads support
Assembly genome
2.6 years ago by jeni ▴ 60
0
votes
0
replies
445
views
Comment: C: How to remove reads supporting the same fragment that other reads support
2.6 years ago by jeni ▴ 60
2
votes
6
replies
1.7k
views
Extract reads with insert size 0 from a bam file
alignment
updated 2.7 years ago by 8.6k • written 2.7 years ago by ▴ 60
0
votes
0
replies
1.7k
views
Comment: C: Extract reads with insert size 0 from a bam file
2.7 years ago by jeni ▴ 60
0
votes
1
reply
1.7k
views
Comment: C: Extract reads with insert size 0 from a bam file
2.7 years ago by jeni ▴ 60
0
votes
0
replies
625
views
Comment: C: Transform genomic intervals to genomic positions in an R dataframe
updated 2.7 years ago by 83k • written 2.7 years ago by ▴ 60
0
votes
1
reply
625
views
Comment: C: Transform genomic intervals to genomic positions in an R dataframe
2.7 years ago by jeni ▴ 60
0
votes
5
replies
625
views
Transform genomic intervals to genomic positions in an R dataframe
R
2.7 years ago by jeni ▴ 60
0
votes
1
reply
548
views
Plot per base coverage from regions coverage with R
R
updated 2.7 years ago by 5.7k • written 2.7 years ago by ▴ 60
54 results • Page 1 of 2
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